Additional file 2 of The chromosome-level wintersweet (Chimonanthus praecox) genome provides insights into floral scent biosynthesis and flowering in winter

Additional file 2: Fig. S1. Evaluation of Chimonanthus praecox genome by k-mer analysis and cell flow cytometry. Fig. S2. Hi-C map of the wintersweet genome showing genome-wide all-by-all interactions. Fig. S3. Chromosome biology of Chimonanthus praecox (a) and Calycanthus chinensis. Fig. S4. Annotation of the wintersweet-specific and expanded genes. Fig. S5. An uneven TE distribution across wintersweet genome and TE distribution in genic regions. Fig. S6. LTR insertion time estimation. Fig. S7. Phylogenetic analysis of wintersweet LTR retrotransposons. Fig. S8. Concatenated- and ASTRAL-based phylogenetic trees. Fig. S9. The phylogenetic tree based on 38 chloroplast genes from 26 species. Fig. S10. A phylogenetic tree of 29 plant species based on 2420 concatenated genes trees using RAxML. Fig. S11. Types of gene duplication in the wintersweet genome. Fig. S12. Duplications of genomic paralogous genes in wintersweet. Fig. S13. Distribution of synonymous substitution levels (Ks) of syntenic orthologous (solid curves) and paralogous genes (dashed curves). Fig. S14. Topologies of gene trees depicting the two possible scenarios of speciation among wintersweet and Liriodendron. Fig. S15. A modified pipeline of ancestral genome reconstruction. Fig. S16. Phylogenetic analysis of FT-like and SVP-like and the analysis of bud break and cell division (CpCDs) related genes and genes involved in phytohormone-related pathways. Fig. S17. Gas chromatogram of glycosidic floral volatiles from the flowers of wintersweet. Fig. S18. Changes of the major floral volatiles during flower development in wintersweet. Fig. S19. Subcellular location of CpTPS proteins. Fig. S20. Cluster and STEM analysis of differentially expressed TFs during flower development. Fig. S21. Promoter cis-element analysis of 52 CpTPSs. Fig. S22. Analysis of benzenoid carboxyl methyltransferases (BCMTs) and cell division (CpCDs) related genes. Fig. S23. Gene structure and classification of putative CpTPSs. Fig. S24. Annotation of the Tandem duplicated genes.